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Literature summary extracted from

  • Sasikaran, J.; Ziemski, M.; Zadora, P.K.; Fleig, A.; Berg, I.A.
    Bacterial itaconate degradation promotes pathogenicity (2014), Nat. Chem. Biol., 10, 371-377.
    View publication on PubMed

Cloned(Commentary)

EC Number Cloned (Comment) Organism
4.1.3.25 gene ccl or PA0883 , genetic structure, the enzyme is encoded in a six-gene operon Pseudomonas aeruginosa
4.1.3.25 gene ccl or Y2383 or ripC, genetic structure, the enzyme is encoded in a three-gene operon, in vitro reconstitution of itaconate degradation pathway with the heterologously produced and purified enzymes from Yersinia pestis Yersinia pestis
4.2.1.56 expressed in Escherichia coli BL21(DE3) cells Pseudomonas aeruginosa
4.2.1.56 expressed in Escherichia coli BL21(DE3) cells Yersinia pestis

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
4.2.1.56 0.034
-
 itaconyl-CoA at pH 7.5 and 45°C Pseudomonas aeruginosa
4.2.1.56 0.12
-
 itaconyl-CoA at pH 7.5 and 45°C Yersinia pestis
4.2.1.56 0.14
-
 (S)-citramalyl-CoA at pH 7.5 and 45°C Pseudomonas aeruginosa
4.2.1.56 0.31
-
 mesaconyl-C4-CoA at pH 7.5 and 45°C Pseudomonas aeruginosa
4.2.1.56 0.49
-
 (S)-citramalyl-CoA at pH 7.5 and 45°C Yersinia pestis
4.2.1.56 0.51
-
 mesaconyl-C4-CoA at pH 7.5 and 45°C Yersinia pestis

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
4.1.3.25 Co2+ activates Pseudomonas aeruginosa
4.1.3.25 Mg2+ activates Yersinia pestis
4.1.3.25 Mg2+ activates Pseudomonas aeruginosa
4.1.3.25 Mn2+ activates Yersinia pestis
4.1.3.25 Mn2+ activates Pseudomonas aeruginosa
4.1.3.25 additional information activity of YpCcl is dependent on the presence of divalent cations such as Mg2+ or Mn2+ Yersinia pestis
4.1.3.25 additional information the enzyme PaCcl requires divalent metal ions, such as Mg2+, Mn2+ or Co2+, for activity Pseudomonas aeruginosa
4.2.1.56 additional information the enzyme does not require divalent metal ions Pseudomonas aeruginosa
4.2.1.56 additional information the enzyme does not require divalent metal ions Yersinia pestis

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
4.1.3.25 (S)-citramalyl-CoA Yersinia pestis
-
 acetyl-CoA + pyruvate
-
 ?
4.1.3.25 (S)-citramalyl-CoA Pseudomonas aeruginosa
-
 acetyl-CoA + pyruvate
-
 ?
4.1.3.25 (S)-citramalyl-CoA Yersinia pestis Y2384
-
 acetyl-CoA + pyruvate
-
 ?
4.2.1.56 itaconyl-CoA + H2O Pseudomonas aeruginosa
-
 (S)-citramalyl-CoA
-
 r
4.2.1.56 itaconyl-CoA + H2O Yersinia pestis
-
 (S)-citramalyl-CoA
-
 r
4.2.1.56 itaconyl-CoA + H2O Yersinia pestis Y2384
-
 (S)-citramalyl-CoA
-
 r
4.2.1.56 itaconyl-CoA + H2O Pseudomonas aeruginosa PA0878
-
 (S)-citramalyl-CoA
-
 r

Organism

EC Number Organism UniProt Comment Textmining
4.1.3.25 Pseudomonas aeruginosa Q9I562 gene ccl or PA0883
-
4.1.3.25 Yersinia pestis
-
 gene ccl or Y2383 or ripC
-
4.2.1.56 Pseudomonas aeruginosa
-
-
-
4.2.1.56 Pseudomonas aeruginosa PA0878
-
-
-
4.2.1.56 Yersinia pestis
-
-
-
4.2.1.56 Yersinia pestis Y2384
-
-
-

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
4.1.3.25 (S)-citramalyl-CoA
-
 Yersinia pestis acetyl-CoA + pyruvate
-
 ?
4.1.3.25 (S)-citramalyl-CoA
-
 Pseudomonas aeruginosa acetyl-CoA + pyruvate
-
 ?
4.1.3.25 (S)-citramalyl-CoA
-
 Yersinia pestis Y2384 acetyl-CoA + pyruvate
-
 ?
4.1.3.25 additional information PaCcl is highly specific for its substrate, (S)-citramalyl-CoA. It also catalyzes stereospecifically the (R)-3-hydroxy-3-methylglutaryl-CoA lyase reaction and the (3S)-citryl-CoA lyase reaction, EC 4.1.3.34, albeit with much lower catalytic efficiency. No activity with (S)-3-hydroxy-3-methylglutaryl-CoA Pseudomonas aeruginosa ?
-
 ?
4.1.3.25 additional information YpCcl does not accept other tested beta-hydroxyacyl-CoA compounds, such as 3-hydroxy-3-methylglutaryl-CoA, (3S)-malyl-CoA or beta-methylmalyl-CoA as substrates, but it catalyzes the (3S)-citryl-CoA lyase reaction, EC 4.1.3.34, albeit with lower catalytic efficiency Yersinia pestis ?
-
 ?
4.1.3.25 additional information YpCcl does not accept other tested beta-hydroxyacyl-CoA compounds, such as 3-hydroxy-3-methylglutaryl-CoA, (3S)-malyl-CoA or beta-methylmalyl-CoA as substrates, but it catalyzes the (3S)-citryl-CoA lyase reaction, EC 4.1.3.34, albeit with lower catalytic efficiency Yersinia pestis Y2384 ?
-
 ?
4.2.1.56 (S)-citramalyl-CoA
-
 Pseudomonas aeruginosa itaconyl-CoA + H2O
-
 r
4.2.1.56 (S)-citramalyl-CoA
-
 Yersinia pestis itaconyl-CoA + H2O
-
 r
4.2.1.56 (S)-citramalyl-CoA
-
 Yersinia pestis Y2384 itaconyl-CoA + H2O
-
 r
4.2.1.56 (S)-citramalyl-CoA
-
 Pseudomonas aeruginosa PA0878 itaconyl-CoA + H2O
-
 r
4.2.1.56 itaconyl-CoA + H2O
-
 Pseudomonas aeruginosa (S)-citramalyl-CoA
-
 r
4.2.1.56 itaconyl-CoA + H2O
-
 Yersinia pestis (S)-citramalyl-CoA
-
 r
4.2.1.56 itaconyl-CoA + H2O
-
 Yersinia pestis Y2384 (S)-citramalyl-CoA
-
 r
4.2.1.56 itaconyl-CoA + H2O
-
 Pseudomonas aeruginosa PA0878 (S)-citramalyl-CoA
-
 r
4.2.1.56 mesaconyl-C4-CoA + H2O
-
 Pseudomonas aeruginosa itaconyl-CoA
-
 r
4.2.1.56 mesaconyl-C4-CoA + H2O
-
 Yersinia pestis itaconyl-CoA
-
 r
4.2.1.56 mesaconyl-C4-CoA + H2O
-
 Yersinia pestis Y2384 itaconyl-CoA
-
 r
4.2.1.56 mesaconyl-C4-CoA + H2O
-
 Pseudomonas aeruginosa PA0878 itaconyl-CoA
-
 r

Synonyms

EC Number Synonyms Comment Organism
4.1.3.25 CCL
-
 Yersinia pestis
4.1.3.25 CCL
-
 Pseudomonas aeruginosa
4.1.3.25 CitE-like protein
-
 Yersinia pestis
4.1.3.25 CitE-like protein
-
 Pseudomonas aeruginosa
4.1.3.25 YpCcl
-
 Yersinia pestis
4.2.1.56 ICH
-
 Pseudomonas aeruginosa
4.2.1.56 ICH
-
 Yersinia pestis
4.2.1.56 RipB
-
 Pseudomonas aeruginosa
4.2.1.56 RipB
-
 Yersinia pestis

General Information

EC Number General Information Comment Organism
4.1.3.25 evolution the itaconate degradation and detoxification pathways of Yersinia and Pseudomonas, both possessing three genes for itaconate degradation, i.e. itaconate coenzyme A (CoA) transferase, itaconyl-CoA hydratase and (S)-citramalyl-CoA lyase, encoded in the rip operon, are the result of convergent evolution Yersinia pestis
4.1.3.25 evolution the itaconate degradation and detoxification pathways of Yersinia and Pseudomonas, both possessing three genes for itaconate degradation, i.e. itaconate coenzyme A (CoA) transferase, itaconyl-CoA hydratase and (S)-citramalyl-CoA lyase, encoded in the rip operon, are the result of convergent evolution Pseudomonas aeruginosa
4.1.3.25 metabolism the enzyme catalyzes the last step of the itaconate degradation pathway Yersinia pestis
4.1.3.25 metabolism the enzyme catalyzes the last step of the itaconate degradation pathway Pseudomonas aeruginosa
4.1.3.25 physiological function the enzyme is crucial for survival of the pathogen in host macrophages Yersinia pestis
4.1.3.25 physiological function the enzyme is crucial for survival of the pathogen in host macrophages Pseudomonas aeruginosa

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
4.2.1.56 4.4
-
 (S)-citramalyl-CoA at pH 7.5 and 45°C Yersinia pestis
4.2.1.56 52.2
-
 itaconyl-CoA at pH 7.5 and 45°C Yersinia pestis
4.2.1.56 98.8
-
 mesaconyl-C4-CoA at pH 7.5 and 45°C Yersinia pestis
4.2.1.56 415
-
 itaconyl-CoA at pH 7.5 and 45°C Pseudomonas aeruginosa
4.2.1.56 415.4
-
 (S)-citramalyl-CoA at pH 7.5 and 45°C Pseudomonas aeruginosa
4.2.1.56 4651
-
 mesaconyl-C4-CoA at pH 7.5 and 45°C Pseudomonas aeruginosa